Admixed gene expression models expand molecular and neurological insights into 6 major psychiatric disorders

Our understanding of the influence of ancestral background on genetically determined expression remains limited, especially when gene expression models are applied to studies from different or multiple populations. We performed transcriptome wide association studies (TWAS) in 6 different psychiatric conditions, leveraging gene expression models trained in cohorts with different proportions of African, European, and Indigenous American genetic ancestries. For comparison we repeated each TWAS using a model trained in individuals of predominantly European ancestry. We identified 1,416 statistically significant TWAS associations (FDR p < 0.05) across the 6 diagnoses, of which 62% were uniquely detected by the admixed gene models. We observed > 92% correlation in the gene-level effects on disease risk, a statistic that remained robust for TWAS results that only reached statistical significance in one population. Using admixed gene expression models validated and greatly extended the yield of TWAS. The resulting transcriptomic signatures implicated neuroimaging features associated with diagnostic symptoms.